From soil to sequence: filling the critical gap in genome-resolved metagenomics is essential to the future of soil microbial ecology

Anthony, Winston E.; Allison, Steven D.; Broderick, Caitlin M.; Chavez Rodriguez, Luciana; Clum, Alicia; Cross, Hugh; Eloe-Fadrosh, Emiley; Evans, Sarah; Fairbanks, Dawson; Gallery, Rachel; Gontijo, Júlia Brandão; Jones, Jennifer; McDermott, Jason; Pett-Ridge, Jennifer; Record, Sydne; Rodrigues, Jorge Luiz Mazza; Rodriguez-Reillo, William; Shek, Katherine L.; Takacs-Vesbach, Tina; Blanchard, Jeffrey L.

doi:10.1186/s40793-024-00599-w

Title: From soil to sequence: filling the critical gap in genome-resolved metagenomics is essential to the future of soil microbial ecology

Journal Article · 02 August 2024 · Environmental Microbiome

DOI: https://doi.org/10.1186/s40793-024-00599-w · OSTI ID:2478736

Anthony, Winston E.; Allison, Steven D.; Broderick, Caitlin M.; Chavez Rodriguez, Luciana; Clum, Alicia; Cross, Hugh; Eloe-Fadrosh, Emiley; Evans, Sarah; Fairbanks, Dawson; Gallery, Rachel; Gontijo, Júlia Brandão; Jones, Jennifer; McDermott, Jason; Pett-Ridge, Jennifer; Record, Sydne; Rodrigues, Jorge Luiz Mazza; Rodriguez-Reillo, William; Shek, Katherine L.; Takacs-Vesbach, Tina; Blanchard, Jeffrey L.

Abstract Soil microbiomes are heterogeneous, complex microbial communities. Metagenomic analysis is generating vast amounts of data, creating immense challenges in sequence assembly and analysis. Although advances in technology have resulted in the ability to easily collect large amounts of sequence data, soil samples containing thousands of unique taxa are often poorly characterized. These challenges reduce the usefulness of genome-resolved metagenomic (GRM) analysis seen in other fields of microbiology, such as the creation of high quality metagenomic assembled genomes and the adoption of genome scale modeling approaches. The absence of these resources restricts the scale of future research, limiting hypothesis generation and the predictive modeling of microbial communities. Creating publicly available databases of soil MAGs, similar to databases produced for other microbiomes, has the potential to transform scientific insights about soil microbiomes without requiring the computational resources and domain expertise for assembly and binning.

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Sponsoring Organization:: USDOE

Grant/Contract Number:: AC05-76RL01830; AC02-05CH11231; 89233218CNA000001

OSTI ID:: 2478736

Journal Information:: Environmental Microbiome, Journal Name: Environmental Microbiome Journal Issue: 1 Vol. 19; ISSN 2524-6372

Publisher:: Springer Science + Business MediaCopyright Statement

Country of Publication:: United Kingdom

Language:: English

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